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| --- | ||
| site: freiburg | ||
| tags: [tools] | ||
| title: UseGalaxy.eu Tool Updates for 2023-08-13 | ||
| supporters: | ||
| - denbi | ||
| - elixir | ||
| --- | ||
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| On 2023-08-13, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in [Jenkins Build #399](https://build.galaxyproject.eu/job/usegalaxy-eu/job/install-tools/#399/) | ||
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| ## Machine Learning | ||
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| - keras_batch_models was updated to [a98b60c639af](https://toolshed.g2.bx.psu.edu/view/bgruening/keras_batch_models/a98b60c639af) | ||
| - keras_model_builder was updated to [20cd4269deb2](https://toolshed.g2.bx.psu.edu/view/bgruening/keras_model_builder/20cd4269deb2) | ||
| - keras_model_config was updated to [b9906ce4756c](https://toolshed.g2.bx.psu.edu/view/bgruening/keras_model_config/b9906ce4756c) | ||
| - keras_train_and_eval was updated to [e29894cdea47](https://toolshed.g2.bx.psu.edu/view/bgruening/keras_train_and_eval/e29894cdea47) | ||
| - ml_visualization_ex was updated to [6fabdcde0214](https://toolshed.g2.bx.psu.edu/view/bgruening/ml_visualization_ex/6fabdcde0214) | ||
| - model_prediction was updated to [948eca2af157](https://toolshed.g2.bx.psu.edu/view/bgruening/model_prediction/948eca2af157) | ||
| - sklearn_build_pipeline was updated to [118e230e85ce](https://toolshed.g2.bx.psu.edu/view/bgruening/sklearn_build_pipeline/118e230e85ce) | ||
| - sklearn_clf_metrics was updated to [15bcf1a7543b](https://toolshed.g2.bx.psu.edu/view/bgruening/sklearn_clf_metrics/15bcf1a7543b) | ||
| - sklearn_data_preprocess was updated to [a5c2ce4ea328](https://toolshed.g2.bx.psu.edu/view/bgruening/sklearn_data_preprocess/a5c2ce4ea328) | ||
| - sklearn_discriminant_classifier was updated to [893285b150f8](https://toolshed.g2.bx.psu.edu/view/bgruening/sklearn_discriminant_classifier/893285b150f8) | ||
| - sklearn_ensemble was updated to [315f01a9d2c2](https://toolshed.g2.bx.psu.edu/view/bgruening/sklearn_ensemble/315f01a9d2c2) | ||
| - sklearn_estimator_attributes was updated to [adaf2457d6ec](https://toolshed.g2.bx.psu.edu/view/bgruening/sklearn_estimator_attributes/adaf2457d6ec) | ||
| - sklearn_feature_selection was updated to [d84b3a229a52](https://toolshed.g2.bx.psu.edu/view/bgruening/sklearn_feature_selection/d84b3a229a52) | ||
| - sklearn_fitted_model_eval was updated to [f73a2b68a37b](https://toolshed.g2.bx.psu.edu/view/bgruening/sklearn_fitted_model_eval/f73a2b68a37b) | ||
| - sklearn_generalized_linear was updated to [c648d0716fb0](https://toolshed.g2.bx.psu.edu/view/bgruening/sklearn_generalized_linear/c648d0716fb0) | ||
| - sklearn_label_encoder was updated to [026ff1ea9f94](https://toolshed.g2.bx.psu.edu/view/bgruening/sklearn_label_encoder/026ff1ea9f94) | ||
| - sklearn_lightgbm was updated to [8e95b68b178b](https://toolshed.g2.bx.psu.edu/view/bgruening/sklearn_lightgbm/8e95b68b178b) | ||
| - sklearn_model_fit was updated to [adb084b901cc](https://toolshed.g2.bx.psu.edu/view/bgruening/sklearn_model_fit/adb084b901cc) | ||
| - sklearn_model_validation was updated to [9dc28a4b6ca8](https://toolshed.g2.bx.psu.edu/view/bgruening/sklearn_model_validation/9dc28a4b6ca8) | ||
| - sklearn_nn_classifier was updated to [d33d37f32e54](https://toolshed.g2.bx.psu.edu/view/bgruening/sklearn_nn_classifier/d33d37f32e54) | ||
| - sklearn_numeric_clustering was updated to [8eed73e8e04d](https://toolshed.g2.bx.psu.edu/view/bgruening/sklearn_numeric_clustering/8eed73e8e04d) | ||
| - sklearn_pairwise_metrics was updated to [053e7f32d37e](https://toolshed.g2.bx.psu.edu/view/bgruening/sklearn_pairwise_metrics/053e7f32d37e) | ||
| - sklearn_pca was updated to [03e0da430d44](https://toolshed.g2.bx.psu.edu/view/bgruening/sklearn_pca/03e0da430d44) | ||
| - sklearn_regression_metrics was updated to [f5dcb87fd14e](https://toolshed.g2.bx.psu.edu/view/bgruening/sklearn_regression_metrics/f5dcb87fd14e) | ||
| - sklearn_sample_generator was updated to [7c2e71e4acf3](https://toolshed.g2.bx.psu.edu/view/bgruening/sklearn_sample_generator/7c2e71e4acf3) | ||
| - sklearn_searchcv was updated to [1ddf415cb349](https://toolshed.g2.bx.psu.edu/view/bgruening/sklearn_searchcv/1ddf415cb349) | ||
| - sklearn_svm_classifier was updated to [fa9d6a4d95ad](https://toolshed.g2.bx.psu.edu/view/bgruening/sklearn_svm_classifier/fa9d6a4d95ad) | ||
| - sklearn_to_categorical was updated to [a4f18bbb4eca](https://toolshed.g2.bx.psu.edu/view/bgruening/sklearn_to_categorical/a4f18bbb4eca) | ||
| - sklearn_train_test_eval was updated to [8b822484debc](https://toolshed.g2.bx.psu.edu/view/bgruening/sklearn_train_test_eval/8b822484debc) | ||
| - sklearn_train_test_split was updated to [b6f5443c4f58](https://toolshed.g2.bx.psu.edu/view/bgruening/sklearn_train_test_split/b6f5443c4f58) | ||
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| ## Statistics | ||
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| - scipy_sparse was updated to [6d1a9fae57eb](https://toolshed.g2.bx.psu.edu/view/bgruening/scipy_sparse/6d1a9fae57eb) | ||
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| ## QIIME 2 | ||
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| - qiime2__deblur__denoise_16S was updated to [2572fc0f88f2](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__deblur__denoise_16S/2572fc0f88f2) | ||
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| ## RNA Analysis | ||
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| - trinity was updated to [9fa24d5aac68](https://toolshed.g2.bx.psu.edu/view/iuc/trinity/9fa24d5aac68) | ||
| - trinity_abundance_estimates_to_matrix was updated to [400691c87530](https://toolshed.g2.bx.psu.edu/view/iuc/trinity_abundance_estimates_to_matrix/400691c87530) | ||
| - trinity_align_and_estimate_abundance was updated to [b2bbe9a7f1b8](https://toolshed.g2.bx.psu.edu/view/iuc/trinity_align_and_estimate_abundance/b2bbe9a7f1b8) | ||
| - trinity_contig_exn50_statistic was updated to [870ac06dff8e](https://toolshed.g2.bx.psu.edu/view/iuc/trinity_contig_exn50_statistic/870ac06dff8e) | ||
| - trinity_filter_low_expr_transcripts was updated to [a35cba31d904](https://toolshed.g2.bx.psu.edu/view/iuc/trinity_filter_low_expr_transcripts/a35cba31d904) | ||
| - trinity_gene_to_trans_map was updated to [7c7fbf13aadd](https://toolshed.g2.bx.psu.edu/view/iuc/trinity_gene_to_trans_map/7c7fbf13aadd) | ||
| - trinity_run_de_analysis was updated to [24e94d84adc9](https://toolshed.g2.bx.psu.edu/view/iuc/trinity_run_de_analysis/24e94d84adc9) | ||
| - trinity_stats was updated to [b2ce45417d9e](https://toolshed.g2.bx.psu.edu/view/iuc/trinity_stats/b2ce45417d9e) | ||
| - trinity_super_transcripts was updated to [5c1fc038df6b](https://toolshed.g2.bx.psu.edu/view/iuc/trinity_super_transcripts/5c1fc038df6b) | ||
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| ## Proteomics | ||
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| - openms_openpepxl was updated to [40cc19c0dbd6](https://toolshed.g2.bx.psu.edu/view/galaxyp/openms_openpepxl/40cc19c0dbd6) | ||
| - openms_openpepxl was updated to [a2a842b00f9c](https://toolshed.g2.bx.psu.edu/view/galaxyp/openms_openpepxl/a2a842b00f9c) | ||
| - openms_openpepxl was updated to [fc36cfd19834](https://toolshed.g2.bx.psu.edu/view/galaxyp/openms_openpepxl/fc36cfd19834) | ||
| - openms_percolatoradapter was updated to [0fc9ae55bcfc](https://toolshed.g2.bx.psu.edu/view/galaxyp/openms_percolatoradapter/0fc9ae55bcfc) | ||
| - openms_percolatoradapter was updated to [e7881a82b56d](https://toolshed.g2.bx.psu.edu/view/galaxyp/openms_percolatoradapter/e7881a82b56d) | ||
| - openms_xfdr was updated to [81402a5e4173](https://toolshed.g2.bx.psu.edu/view/galaxyp/openms_xfdr/81402a5e4173) | ||
| - openms_xfdr was updated to [9a6e3bb0f358](https://toolshed.g2.bx.psu.edu/view/galaxyp/openms_xfdr/9a6e3bb0f358) | ||
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| ## Imaging | ||
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| - overlay_images was updated to [b74693340624](https://toolshed.g2.bx.psu.edu/view/imgteam/overlay_images/b74693340624) | ||
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| ## Annotation | ||
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| - pharokka was updated to [2f40d2ccb0eb](https://toolshed.g2.bx.psu.edu/view/iuc/pharokka/2f40d2ccb0eb) | ||
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| ## Assembly | ||
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| - merqury was updated to [09c589057ee8](https://toolshed.g2.bx.psu.edu/view/iuc/merqury/09c589057ee8) | ||
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| ## BED | ||
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| - bedops_sortbed was updated to [baeee32175e8](https://toolshed.g2.bx.psu.edu/view/iuc/bedops_sortbed/baeee32175e8) | ||
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| ## FASTA/FASTQ | ||
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| - fasta_formatter was updated to [516b97a23d7e](https://toolshed.g2.bx.psu.edu/view/devteam/fasta_formatter/516b97a23d7e) | ||
| - fasta_nucleotide_changer was updated to [f773e98b26cf](https://toolshed.g2.bx.psu.edu/view/devteam/fasta_nucleotide_changer/f773e98b26cf) | ||
| - fastq_quality_boxplot was updated to [867ab348287d](https://toolshed.g2.bx.psu.edu/view/devteam/fastq_quality_boxplot/867ab348287d) | ||
| - fastq_quality_converter was updated to [045f0e1043f7](https://toolshed.g2.bx.psu.edu/view/devteam/fastq_quality_converter/045f0e1043f7) | ||
| - fastq_quality_filter was updated to [64e9a6afdd0c](https://toolshed.g2.bx.psu.edu/view/devteam/fastq_quality_filter/64e9a6afdd0c) | ||
| - fastq_to_fasta was updated to [77b41c89d856](https://toolshed.g2.bx.psu.edu/view/devteam/fastq_to_fasta/77b41c89d856) | ||
| - fastx_artifacts_filter was updated to [529bccd5e4a1](https://toolshed.g2.bx.psu.edu/view/devteam/fastx_artifacts_filter/529bccd5e4a1) | ||
| - fastx_barcode_splitter was updated to [0b7ec11b3c7c](https://toolshed.g2.bx.psu.edu/view/devteam/fastx_barcode_splitter/0b7ec11b3c7c) | ||
| - fastx_clipper was updated to [90858c306551](https://toolshed.g2.bx.psu.edu/view/devteam/fastx_clipper/90858c306551) | ||
| - fastx_collapser was updated to [07497255281e](https://toolshed.g2.bx.psu.edu/view/devteam/fastx_collapser/07497255281e) | ||
| - fastx_nucleotides_distribution was updated to [b6b54ba71bd8](https://toolshed.g2.bx.psu.edu/view/devteam/fastx_nucleotides_distribution/b6b54ba71bd8) | ||
| - fastx_quality_statistics was updated to [cc0fd298cc17](https://toolshed.g2.bx.psu.edu/view/devteam/fastx_quality_statistics/cc0fd298cc17) | ||
| - fastx_renamer was updated to [f984bb114520](https://toolshed.g2.bx.psu.edu/view/devteam/fastx_renamer/f984bb114520) | ||
| - fastx_reverse_complement was updated to [177f0621c266](https://toolshed.g2.bx.psu.edu/view/devteam/fastx_reverse_complement/177f0621c266) | ||
| - fastx_trimmer was updated to [73194cdd4f57](https://toolshed.g2.bx.psu.edu/view/devteam/fastx_trimmer/73194cdd4f57) | ||
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| ## Metagenomic Analysis | ||
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| - dada2_assigntaxonomyaddspecies was updated to [7c2100246a2f](https://toolshed.g2.bx.psu.edu/view/iuc/dada2_assigntaxonomyaddspecies/7c2100246a2f) | ||
| - dada2_dada was updated to [96336c6a2bb7](https://toolshed.g2.bx.psu.edu/view/iuc/dada2_dada/96336c6a2bb7) | ||
| - dada2_filterandtrim was updated to [addaf9d22850](https://toolshed.g2.bx.psu.edu/view/iuc/dada2_filterandtrim/addaf9d22850) | ||
| - dada2_learnerrors was updated to [75403243703a](https://toolshed.g2.bx.psu.edu/view/iuc/dada2_learnerrors/75403243703a) | ||
| - dada2_makesequencetable was updated to [43c99742158b](https://toolshed.g2.bx.psu.edu/view/iuc/dada2_makesequencetable/43c99742158b) | ||
| - dada2_mergepairs was updated to [5c865a382933](https://toolshed.g2.bx.psu.edu/view/iuc/dada2_mergepairs/5c865a382933) | ||
| - dada2_plotcomplexity was updated to [78faebd0879c](https://toolshed.g2.bx.psu.edu/view/iuc/dada2_plotcomplexity/78faebd0879c) | ||
| - dada2_plotqualityprofile was updated to [7b8cb2b02978](https://toolshed.g2.bx.psu.edu/view/iuc/dada2_plotqualityprofile/7b8cb2b02978) | ||
| - dada2_removebimeradenovo was updated to [7136e9ab70db](https://toolshed.g2.bx.psu.edu/view/iuc/dada2_removebimeradenovo/7136e9ab70db) | ||
| - dada2_seqcounts was updated to [19299bb1c6af](https://toolshed.g2.bx.psu.edu/view/iuc/dada2_seqcounts/19299bb1c6af) | ||
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| ## Mothur | ||
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| - mothur_unifrac_unweighted was updated to [42ae7755f3c1](https://toolshed.g2.bx.psu.edu/view/iuc/mothur_unifrac_unweighted/42ae7755f3c1) | ||
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| ## Virology | ||
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| - lineagespot was updated to [6ddf5a9ce4a5](https://toolshed.g2.bx.psu.edu/view/iuc/lineagespot/6ddf5a9ce4a5) | ||
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| ## None | ||
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| - data_manager_diamond_database_builder was updated to [4a08b7b76b78](https://toolshed.g2.bx.psu.edu/view/iuc/data_manager_diamond_database_builder/4a08b7b76b78) | ||
| - data_manager_pharokka was updated to [50caca83e7c9](https://toolshed.g2.bx.psu.edu/view/iuc/data_manager_pharokka/50caca83e7c9) | ||
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